ArticleNucleic acids research2024
RegulonDB v12.0: a comprehensive resource of transcriptional regulation in E. coli K-12.
Article in Nucleic acids research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 81 papers.
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Who cites it
81 citing papers in PubMed.
- Transcriptional regulatory network differences between six industrialMetabolic engineering communications · 2026Article
- Thermal Shifts Dominate Single-Gene Responses to Transcription-Targeting Antibiotics.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Review
- iModulonMiner 2.0: multi-modality modularization of prokaryotic bulk, single-cell, and community omics data.Nucleic acids research · 2026Article
- Distinct transcription factor network dynamics underlie early and long-term adaptation to rifampicin inmSystems · 2026Article
- Blocked transcription-translation complexes are rescued by transcript release followed byJournal of bacteriology · 2026Article
- DDTRN: predicting bacterial transcriptional regulatory networks based on gene sequences using dual descriptor.Briefings in bioinformatics · 2026Article
- AResKGLM: a graph-grounded language-model framework for interpretable multi-hop antimicrobial resistance reasoning.Briefings in bioinformatics · 2026Article
- Combinatorial group testing for efficient scaling across biological applications.Nature communications · 2026Article
- Disentangling factors affecting bacterial transcriptional regulatory network inference.iScience · 2026Article
- Polymorphisms in a bacterial signalling pathway alter evolutionary routes of antibiotic resistance in Escherichia coli.PLoS biology · 2026Article
- Opportunities for artificial intelligence and synthetic biology in designing living drug delivery systems.Advanced drug delivery reviews · 2026Review
- Cross-regulation of amino acid synthesis and anaerobic electron transfer by MetR-mediated methionine signaling.Journal of bacteriology · 2026Article
- The adaptive landscapes of three globaleLife · 2026Article
- Core elements play distinct roles in promoter birth and transcriptional regulation.Nature communications · 2026Article
- CRP-dependent DNA anchoring and membrane sequestration define a dual mechanism for MtlR-mediated regulation.Nucleic acids research · 2026Article
- Ligify 2.0: a web server for predicted small molecule biosensors.Nucleic acids research · 2026Article
- The allostery principle supports the symbolic character of signaling circuits: gene regulation provides a form of intelligence to living systems.Theory in biosciences = Theorie in den Biowissenschaften · 2026Article
- Systematic design of auxotrophic strains and media conditions to probe metabolic functions in E. coli.PLoS computational biology · 2026Article
- Knockout ofJournal of bacteriology · 2026Article
21 more citing papers are in PubMed but not listed here.
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Authors and funding
25 authors.
Funding
Abstract
RegulonDB is a database that contains the most comprehensive corpus of knowledge of the regulation of transcription initiation of Escherichia coli K-12, including data from both classical molecular biology and high-throughput methodologies. Here, we describe biological advances since our last NAR paper of 2019. We explain the changes to satisfy FAIR requirements. We also present a full reconstruction of the RegulonDB computational infrastructure, which has significantly improved data storage, retrieval and accessibility and thus supports a more intuitive and user-friendly experience. The integration of graphical tools provides clear visual representations of genetic regulation data, facilitating data interpretation and knowledge integration. RegulonDB version 12.0 can be accessed at https://regulondb.ccg.unam.mx.
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Registered trials
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